Sequence
atgc intronic sequence ATGC exonic sequencegtatgttctattccctttttttttatctggtttgttaaatgtcttgttccctatatactcttctcttttggcagTGGTGATAGAACTCCAAAACAGAAGGTGAAGCTAAAGGTTACTGAGGAAAAGCTGCTGAACTTAATGTTGAAATACAATGGTGGCCGGCCGAGATCTGAG
Basic information
species | Glycine max |
transcript | GLYMA19G02260.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os03g48300.1 (Oryza sativa), 3'ss of exon 12
gtatgttctattccctttttttttatctggtttgt---------taaatgtct-tgttccctatatac-tcttctcttttggcagTGGTGATAGAACTCCAAAACAGAAGGTGAAGCTAAAGGTTACTGAGGAAAAGCTGCTGAACTTAATGTTGAAATACAATGGTGGCCGGCCGAGATCTGAG
||| | || | ||| | | | | | | || ||||| | |||| | | || ||| | | | ||||| ||| | || ||||| ||||| ||||| | || |||||||||||||| || ||||| || |||||||||||||||||||| ||| ||| |||||
gtaaggattactgcctctatgctggttaagctggtattgaatgataaatattggtgttgtgtcttgacatctaatatctgtttagTGGCGATCGGACACCAAAGCAGAAAGTGAAATTGAAAGTTACTGAGGAAAAACTCCTGAATTTGATGTTGAAATACAATGGTGGAAAGCCAAGAGCTGAG
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 10
lower sequence: AT3G01310.1 (Arabidopsis thaliana), 3'ss of exon 13
-----------------gtatgttctattccctttttttttatctggtttgttaaatgtcttgttccctatatactcttctcttttggcagTGGTGATAGAACTCCAAAACAGAAGGTGAAGCTAAAGGTTACTGAGGAAAAGCTGCTGAACTTAATGTTGAAATACAATGGTGGCCGGCCGAGATCTGAG
| | | | ||| | || | |||| || || | | | | | | | || |||||| ||||||||||| || ||||| ||||| ||||| ||||| |||||||| || | ||| |||||||||| ||||||||||| ||| ||| |||||
gtatgttgtagcatataatcacctgttcttcctatccttctctctgtttagtcaggatctgagaagtgttcaactttgttttacatgtcagTGGCGATAGAACTCCCAAGCAGAAAGTGAAACTAAAAGTTACAGAGGAAAAACTATTAAACCTAATGTTGAAGTACAATGGTGGAAAGCCAAGAGCTGAG
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 13
------------gtatgttctattccctttttttttatctggtttgttaa---atgtcttgttccctatatactcttctcttttggcagTGGTGATAGAACTCCAAAACAGAAGGTGAAGCTAAAGGTTACTGAGGAAAAGCTGCTGAACTTAATGTTGAAATACAATGGTGGCCGGCCGAGATCTGAG
|||| || | | | | || || | |||| | | | | || || | || | ||| ||| ||||||||||||||| || || ||||| ||||| ||||| ||||| ||||| || ||| | ||| | |||||||| |||||||| || || ||| |||||
gtatgttttagcatatgatcacctgtcctctcttaactcctctctgttcacccaggccctgagttctgttta---tcttctcttgacagTGGTGATAGAACCCCCAAGCAGAAAGTGAAACTAAAAGTTACAGAGGAGAAACTGTTAAACCTGATGTTGAAGTACAATGGAGGAAAACCAAGAGCTGAG
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 12
gtatgttctattccctt---tttttttatctggtttgtta---aatgtcttgttccctatatactc---ttctcttttggcagTGGTGATAGAACTCCAAAACAGAAGGTGAAGCTAAAGGTTACTGAGGAAAAGCTGCTGAACTTAATGTTGAAATACAATGGTGGCCGGCCGAGATCTGAG
||| | ||||| | | ||| |||| | || | || | | |||| || | || | ||| |||||||||||||| ||||| |||||||||||||| | || || || ||||| ||||| |||| || ||||| ||||||||||| || |||| |||||||||
gtaagatctatgtcatcccatttctttacttaaattaagatgtaacctttctctcccagcttagttgtgttttatttgggcagTGGTGATAGGACTCCCAAACAGAAGGTGAAATTGAAAGTCACAGAGGAGAAGCTATTGAATTTGATGTTAAAATACAATGGGGGGAGGCCTAGATCTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttatctggtttgttaaatgtcttgttccctatatactcttctcttttggcagTGGTGATAGAACTCCAAAACAGAAGGTGAAGCTAAAGGTTACTGAGGAAAAGCTGCTGAACTTAATGTTGAAATACAATGGTGGCCGGCCGAGATCTGAG
tcttgttccctatata CT-rich tract
tttgttaaat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttctattccctttttttttatctggtttgttaaatgtcttgttccctatatactcttctcttttggcagTGGTGATAGAACTCCAAAACAGAAGGTGAAGCTAAAGGTTACTGAGGAAAAGCTGCTGAACTTAATGTTGAAATACAATGGTGGCCGGCCGAGATCTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC